Im looking to change my V12 over to FI with Megasquirt and have a quick question on the intake manifolds. The engine has two separate intake manifolds, throttle bodys, and will each have its own turbo. (Basically two inline 6's side by side)

My question is, there is a balance tube in between both intake manifolds to keep both intake pressures equal, can i still use this or will the added back pressure on each turbo cause me problems?

It would really benefit me if i could use the balance tube to equal the PSI to both banks. From my understanding Megasquirt can start to become buggy/difficult to program if you want to use two MAP sensors and two Boost Controls, so if i could use one MAP sensor and use a single Boost Control for both turbos, that would be AWESOME!

Here is a quick drawing i threw together to describe what im talking about.

I would actually go ahead and make a much larger tube with a throttle plate in it. Then use a wastegate to open the throttle plate at a target pressure. I got this idea from the Subaru EG33. The stock intake manifold comes fully divided with what I described in the middle, subaru named it the "isis valve"

The advantage of this system is creating more down low torque whilst increasing effective plenum volume at higher RPMs. It's worth a shot.